data_7EBX # _model_server_result.job_id ClXOXUnnb7KWdJfowcASaQ _model_server_result.datetime_utc '2024-10-20 19:27:43' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 7ebx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7EBX # _exptl.entry_id 7EBX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 7EBX _cell.length_a 102.155 _cell.length_b 102.155 _cell.length_c 102.144 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7EBX _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C 1 1 A,B,C 1 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_554 -y,-x,-z-1/4 0 -1 0 -1 0 0 0 0 -1 0 0 -25.536 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 137 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 137 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 265 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 265 _struct_conn.ptnr2_symmetry 1_555 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id ? _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id ? _struct_conn.pdbx_ptnr3_PDB_ins_code ? _struct_conn.pdbx_ptnr3_label_alt_id ? _struct_conn.pdbx_ptnr3_label_asym_id ? _struct_conn.pdbx_ptnr3_label_atom_id ? _struct_conn.pdbx_ptnr3_label_comp_id ? _struct_conn.pdbx_ptnr3_label_seq_id ? _struct_conn.pdbx_PDB_id ? _struct_conn.pdbx_dist_value 2.031 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag N CA SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 7EBX _atom_sites.fract_transf_matrix[1][1] 0.009789 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009789 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.00979 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 SAH A 1 301 1 SAH SAH . C 3 HOH A 1 401 1 HOH HOH . C 3 HOH A 2 402 5 HOH HOH . C 3 HOH A 3 403 3 HOH HOH . C 3 HOH A 4 404 6 HOH HOH . C 3 HOH A 5 405 4 HOH HOH . C 3 HOH A 6 406 2 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 N N SAH . . . B 2 -20.115 48.409 -12.312 0.92 84.81 ? N SAH 301 A 1 HETATM 2 C CA SAH . . . B 2 -18.774 48.268 -12.936 0.92 83.4 ? CA SAH 301 A 1 HETATM 3 C CB SAH . . . B 2 -17.807 47.572 -11.977 0.92 81.17 ? CB SAH 301 A 1 HETATM 4 C CG SAH . . . B 2 -18.034 46.086 -11.861 0.92 80.47 ? CG SAH 301 A 1 HETATM 5 S SD SAH . . . B 2 -16.868 45.297 -10.752 0.92 82.76 ? SD SAH 301 A 1 HETATM 6 C C SAH . . . B 2 -18.895 47.441 -14.22 0.92 86.09 ? C SAH 301 A 1 HETATM 7 O O SAH . . . B 2 -20.02 47.33 -14.716 0.92 89.26 ? O SAH 301 A 1 HETATM 8 O OXT SAH . . . B 2 -17.858 46.933 -14.663 0.92 83.99 ? OXT SAH 301 A 1 HETATM 9 C C5' SAH . . . B 2 -17.405 45.917 -9.148 0.92 82.83 ? C5' SAH 301 A 1 HETATM 10 C C4' SAH . . . B 2 -16.47 46.956 -8.593 0.92 82.76 ? C4' SAH 301 A 1 HETATM 11 O O4' SAH . . . B 2 -16.927 47.366 -7.286 0.92 83.43 ? O4' SAH 301 A 1 HETATM 12 C C3' SAH . . . B 2 -15.028 46.486 -8.409 0.92 83.57 ? C3' SAH 301 A 1 HETATM 13 O O3' SAH . . . B 2 -14.131 47.512 -8.804 0.92 83.29 ? O3' SAH 301 A 1 HETATM 14 C C2' SAH . . . B 2 -14.915 46.317 -6.895 0.92 84.71 ? C2' SAH 301 A 1 HETATM 15 O O2' SAH . . . B 2 -13.587 46.513 -6.469 0.92 85.15 ? O2' SAH 301 A 1 HETATM 16 C C1' SAH . . . B 2 -15.809 47.459 -6.445 0.92 84.67 ? C1' SAH 301 A 1 HETATM 17 N N9 SAH . . . B 2 -16.258 47.358 -5.068 0.92 87.45 ? N9 SAH 301 A 1 HETATM 18 C C8 SAH . . . B 2 -16.127 46.278 -4.239 0.92 89.86 ? C8 SAH 301 A 1 HETATM 19 N N7 SAH . . . B 2 -16.624 46.48 -3.047 0.92 90.53 ? N7 SAH 301 A 1 HETATM 20 C C5 SAH . . . B 2 -17.113 47.773 -3.093 0.92 89.99 ? C5 SAH 301 A 1 HETATM 21 C C6 SAH . . . B 2 -17.762 48.572 -2.137 0.92 90.99 ? C6 SAH 301 A 1 HETATM 22 N N6 SAH . . . B 2 -18.035 48.168 -0.902 0.92 90.34 ? N6 SAH 301 A 1 HETATM 23 N N1 SAH . . . B 2 -18.119 49.821 -2.505 0.92 93.8 ? N1 SAH 301 A 1 HETATM 24 C C2 SAH . . . B 2 -17.839 50.22 -3.748 0.92 94.97 ? C2 SAH 301 A 1 HETATM 25 N N3 SAH . . . B 2 -17.235 49.559 -4.727 0.92 94.77 ? N3 SAH 301 A 1 HETATM 26 C C4 SAH . . . B 2 -16.893 48.326 -4.334 0.92 90.74 ? C4 SAH 301 A 1 HETATM 27 H HN1 SAH . . . B 2 -20.108 48.013 -11.394 0.92 84.81 ? HN1 SAH 301 A 1 HETATM 28 H HN2 SAH . . . B 2 -20.344 49.339 -12.254 0.92 84.81 ? HN2 SAH 301 A 1 HETATM 29 H HA SAH . . . B 2 -18.431 49.167 -13.147 0.92 83.4 ? HA SAH 301 A 1 HETATM 30 H HB1 SAH . . . B 2 -17.915 47.962 -11.084 0.92 81.17 ? HB1 SAH 301 A 1 HETATM 31 H HB2 SAH . . . B 2 -16.892 47.711 -12.299 0.92 81.17 ? HB2 SAH 301 A 1 HETATM 32 H HG1 SAH . . . B 2 -17.957 45.677 -12.75 0.92 80.47 ? HG1 SAH 301 A 1 HETATM 33 H HG2 SAH . . . B 2 -18.945 45.923 -11.536 0.92 80.47 ? HG2 SAH 301 A 1 HETATM 34 H "H5'1" SAH . . . B 2 -17.447 45.185 -8.538 0.92 82.83 ? "H5'1" SAH 301 A 1 HETATM 35 H "H5'2" SAH . . . B 2 -18.271 46.305 -9.246 0.92 82.83 ? "H5'2" SAH 301 A 1 HETATM 36 H H4' SAH . . . B 2 -16.467 47.741 -9.194 0.92 82.76 ? H4' SAH 301 A 1 HETATM 37 H H3' SAH . . . B 2 -14.883 45.616 -8.863 0.92 83.57 ? H3' SAH 301 A 1 HETATM 38 H HO3' SAH . . . B 2 -14.271 48.197 -8.323 0 83.29 ? HO3' SAH 301 A 1 HETATM 39 H H2' SAH . . . B 2 -15.282 45.437 -6.613 0.92 84.71 ? H2' SAH 301 A 1 HETATM 40 H HO2' SAH . . . B 2 -13.548 46.414 -5.627 0 85.15 ? HO2' SAH 301 A 1 HETATM 41 H H1' SAH . . . B 2 -15.33 48.309 -6.57 0.92 84.67 ? H1' SAH 301 A 1 HETATM 42 H H8 SAH . . . B 2 -15.72 45.47 -4.5 0.92 89.86 ? H8 SAH 301 A 1 HETATM 43 H HN61 SAH . . . B 2 -18.44 48.712 -0.346 0 90.34 ? HN61 SAH 301 A 1 HETATM 44 H HN62 SAH . . . B 2 -17.809 47.359 -0.649 0 90.34 ? HN62 SAH 301 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #